recipe mothur

This project seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community.

Homepage:

https://www.mothur.org

Documentation:

https://mothur.org/wiki/mothur_manual

Developer docs:

https://github.com/mothur/mothur

License:

GPL3 / GPL-3.0-or-later

Recipe:

/mothur/meta.yaml

Links:

doi: 10.1128/AEM.01541-09, usegalaxy-eu: mothur_get_label, biotools: mothur

package mothur

(downloads) docker_mothur

versions:
1.48.3-0,  1.48.0-3,  1.48.0-2,  1.48.0-1,  1.48.0-0,  1.47.0-2,  1.47.0-1,  1.47.0-0,  1.46.1-1, 

1.48.3-0,  1.48.0-3,  1.48.0-2,  1.48.0-1,  1.48.0-0,  1.47.0-2,  1.47.0-1,  1.47.0-0,  1.46.1-1,  1.46.1-0,  1.46.0-0,  1.45.3-0,  1.44.11-0,  1.44.1-2,  1.44.1-1,  1.44.1-0,  1.44.0-0,  1.43.0-0,  1.42.3-0,  1.42.1-0,  1.42.0-0,  1.41.3-0,  1.41.0-0,  1.40.5-0,  1.39.5-4,  1.39.5-3,  1.39.5-2,  1.39.5-1,  1.39.5-0,  1.38.1.1-0,  1.36.1-2,  1.36.1-1,  1.36.1-0,  1.25.0-0

depends boost-cpp:

depends bzip2:

>=1.0.8,<2.0a0

depends gsl:

>=2.7,<2.8.0a0

depends hdf5:

>=1.14.3,<1.14.4.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends readline:

>=8.2,<9.0a0

depends sra-tools:

>=3.2.1,<4.0a0

depends vsearch:

>=2.15.2

depends vsearch:

>=2.30.0,<3.0a0

requirements:

additional platforms:
linux-aarch64,  osx-arm64

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install mothur

and update with::

   mamba update mothur

To create a new environment, run:

mamba create --name myenvname mothur

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull quay.io/biocontainers/mothur:<tag>

(see `mothur/tags`_ for valid values for ``<tag>``)

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